Rh3CG080800

RNA polymerase II-associated protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0005138
Physical Location & Seq
Reverse (-)
6267504 .. 6271210
3707 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG080800.1

Sequence Viewer

Length: 1212 bp
ATGGCTAGGGCTCCAAGCAAGCACGGTCGCGACCAAGCTCTGGATTTCCAGGGGTTTTTGAGTGACTTGCAGGACTGGGAGCTTTCACTCAAGGACAAGGACAAGGATAAAAAAATGAGGCCACAAGAACCCAACAGGGAAATTCCGAAATCAGGAGATTTTGGAACTAGTTCCTACTCGAGGAATTATGATCCAATCAATACTATATCCAGTAGTTTCGGTTCTGAAGATAGTCTTCCAGATGCTGCTTCGGAAAAGGACTTGGGTAATGAGTATTTTAAGCAGAAGAAGTTTAAGGAAGCTATTGACTGCTATTCAAGAAGCATTGCCTTATCTCCAACTGCTGTAGCTTTTGCAAATAGGGCAATGTCATATATCAAAATCAAAAGATTCCAGGAAGCCGAGAATGACTGTACAGAGGCCTTGAATTTGGATGATCGCTATATAAAAGCATACTCACGACGTGCGACAGCTAGAAAAGAACTGGGAAAACTTAAAGAATCTGTTGAGGATGCAGAGTTTGCTCTGAGGTTGGAGCCACACAACCAAGAAATCAAGAAACAATATGCTGAGGCCAAATCTTTGTATGAAAAAAGAATTCTTCAGAAAATTTCTGAACAAGAAAAGCAGAAAGTGGGAAAGTTGGATACCAAAGTGAATGGACACAGCATCCAGCCTGTTTCTAGTAGTACTCAAAGGACAGAAATGACTGCAGTTGTGGATCACACTAAGAAAATTAACACAAGTGGGAAGCAAGCGTCGAAGGTATCGGTACAGGAGCTTGCTTCTCGAGCTGCTTTGCGAGCCAAGGTTCTAGCTGCAGAAAATATGACACCACCAACTTCAGCTTATCAATTTGAGGCTTCTTGGAGAGGACTCTCTGGAGATCGTGCTCTTCAGGCTAAATTTTTGAAGGCTATATCTCCCAGTGCACTGCCGCAGATATTCAAAAATGCTTTGACTGTTCACATACTAGTTGATATCATCAAGTGTGTGACAACCTTTTTTATGGACGAAATGGATTTGGCGGTCAACATTTTGGAGAACTTAACTATGGTTCCTAGGTTTGACACACTCGTCATGTTTCTTTCATCCAATGACAAGGCTGATCTTGCTAAGATATGGGATGAAGTGTTCTACAATGAAGCAACCCCCATTGAGTTTGCTGAAAAGCTGGATAACCTGCGTACAAAGTACTGCCTTAAGCAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0032991 GO:0044424 GO:0044444 GO:0044464 GO:0097255
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RPAP3_C TPR_1 TPR_8

Protein Analysis

403

Amino Acids

45.63

Weight (kDa)

8.58

Isoelectric Point (pI)

41.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_BSK1_C PF25575 77 - 151 7.8e-08 Serine/threonine-protein kinase BSK1-like, TPR repeats
TPR_1 PF00515 86 - 114 5.6e-08 Tetratricopeptide repeat
RPAP3_C PF13877 279 - 368 9e-27 Potential Monad-binding region of RPAP3
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1076
Acc36I ACCTGC 1 cut(s) 1191
AccB7I CCANNNNNTGG 1 cut(s) 40
AccII CGCG 1 cut(s) 30
AciI CCGC 2 cut(s) 938, 1028
AclWI GGATC 2 cut(s) 185, 729
AcsI RAATTY 5 cut(s) 141, 427, 597, 609, 905
AcuI CTGAAG 4 cut(s) 246, 587, 828, 881
AdeI CACNNNGTG 1 cut(s) 464
AfaI GTAC 5 cut(s) 415, 691, 774, 1189, 1196
AfiI CCNNNNNNNGG 3 cut(s) 40, 152, 180
AflII CTTAAG 1 cut(s) 1202
AgsI TTSAA 4 cut(s) 318, 427, 913, 949
AhlI ACTAGT 2 cut(s) 167, 973
AjiI CACGTC 1 cut(s) 464
AjnI CCWGG 2 cut(s) 48, 393
AloI GAACNNNNNNTCC 2 cut(s) 1118, 1150
Alw21I GWGCWC 2 cut(s) 895, 934
Alw44I GTGCAC 1 cut(s) 930
AlwI GGATC 2 cut(s) 185, 729
AlwNI CAGNNNCTG 1 cut(s) 245
Ama87I CYCGRG 2 cut(s) 178, 789
AoxI GGCC 3 cut(s) 119, 420, 573
ApaLI GTGCAC 1 cut(s) 930
ApeKI GCWGC 3 cut(s) 245, 794, 818
ApoI RAATTY 5 cut(s) 141, 427, 597, 609, 905
Asp700I GAANNNNTTC 1 cut(s) 169
AspA2I CCTAGG 1 cut(s) 1061
AvaI CYCGRG 2 cut(s) 178, 789
AvrII CCTAGG 1 cut(s) 1061
BaeGI GKGCMC 1 cut(s) 934
BaeI ACNNNNGTAYC 2 cut(s) 639, 672
BanII GRGCYC 1 cut(s) 13
BbsI GAAGAC 1 cut(s) 227
Bbv12I GWGCWC 2 cut(s) 895, 934
BbvCI CCTCAGC 1 cut(s) 570
BbvI GCAGC 3 cut(s) 232, 781, 805
BciT130I CCWGG 2 cut(s) 50, 395
BciVI GTATCC 1 cut(s) 640
BcuI ACTAGT 2 cut(s) 167, 973
BfaI CTAG 7 cut(s) 6, 168, 474, 684, 815, 974, 1062
BfmI CTRYAG 3 cut(s) 345, 711, 819
BfrI CTTAAG 1 cut(s) 1202
BfuAI ACCTGC 1 cut(s) 1191
BfuI GTATCC 1 cut(s) 640
BisI GCNGC 4 cut(s) 246, 795, 819, 938
BlnI CCTAGG 1 cut(s) 1061
BlsI GCNGC 4 cut(s) 247, 796, 820, 939
BmcAI AGTACT 2 cut(s) 691, 1196
Bme1390I CCNGG 2 cut(s) 50, 395
BmeT110I CYCGRG 2 cut(s) 178, 789
BmgBI CACGTC 1 cut(s) 464
BmiI GGNNCC 3 cut(s) 12, 537, 1059
BmrFI CCNGG 2 cut(s) 50, 395
BmrI ACTGGG 3 cut(s) 85, 494, 921
BmsI GCATC 3 cut(s) 232, 502, 678
BmuI ACTGGG 3 cut(s) 85, 494, 921
BpiI GAAGAC 1 cut(s) 227
BpmI CTGGAG 1 cut(s) 903
Bpu10I CCTNAGC 1 cut(s) 570
BpuEI CTTGAG 1 cut(s) 74
BsaJI CCNNGG 3 cut(s) 49, 807, 1061
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 152, 180
Bse1I ACTGG 4 cut(s) 80, 210, 489, 927
Bse3DI GCAATG 2 cut(s) 324, 372
BseBI CCWGG 2 cut(s) 50, 395
BseDI CCNNGG 3 cut(s) 49, 807, 1061
BseGI GGATG 5 cut(s) 439, 517, 669, 1091, 1132
BseLI CCNNNNNNNGG 3 cut(s) 40, 152, 180
BseMI GCAATG 2 cut(s) 324, 372
BseMII CTCAG 2 cut(s) 518, 561
BseNI ACTGG 4 cut(s) 80, 210, 489, 927
BseSI GKGCMC 1 cut(s) 934
BseXI GCAGC 3 cut(s) 232, 781, 805
Bsh1236I CGCG 1 cut(s) 30
Bsh1285I CGRYCG 1 cut(s) 28
BshFI GGCC 3 cut(s) 121, 422, 575
BsiEI CGRYCG 1 cut(s) 28
BsiHKAI GWGCWC 2 cut(s) 895, 934
BsiHKCI CYCGRG 2 cut(s) 178, 789
BslI CCNNNNNNNGG 3 cut(s) 40, 152, 180
BsnI GGCC 3 cut(s) 121, 422, 575
BsoBI CYCGRG 2 cut(s) 178, 789
Bsp1286I GDGCHC 3 cut(s) 13, 895, 934
Bsp1407I TGTACA 1 cut(s) 413
Bsp143I GATC 5 cut(s) 190, 436, 721, 886, 1108
Bsp68I TCGCGA 1 cut(s) 30
BspACI CCGC 2 cut(s) 938, 1028
BspANI GGCC 3 cut(s) 121, 422, 575
BspCNI CTCAG 2 cut(s) 519, 562
BspFNI CGCG 1 cut(s) 30
BspLI GGNNCC 3 cut(s) 12, 537, 1059
BspMAI CTGCAG 2 cut(s) 715, 823
BspMI ACCTGC 1 cut(s) 1191
BspPI GGATC 2 cut(s) 185, 729
BspQI GCTCTTC 1 cut(s) 900
BspTI CTTAAG 1 cut(s) 1202
BsrDI GCAATG 2 cut(s) 324, 372
BsrGI TGTACA 1 cut(s) 413
BsrI ACTGG 4 cut(s) 80, 210, 489, 927
BssECI CCNNGG 3 cut(s) 49, 807, 1061
BssMI GATC 5 cut(s) 190, 436, 721, 886, 1108
BssT1I CCWWGG 2 cut(s) 807, 1061
Bst2UI CCWGG 2 cut(s) 50, 395
Bst4CI ACNGT 3 cut(s) 26, 413, 964
Bst6I CTCTTC 1 cut(s) 900
BstAFI CTTAAG 1 cut(s) 1202
BstAPI GCANNNNNTGC 1 cut(s) 521
BstAUI TGTACA 1 cut(s) 413
BstC8I GCNNGC 4 cut(s) 20, 756, 783, 804
BstDEI CTNAG 4 cut(s) 527, 570, 729, 1116
BstENI CCTNNNNNAGG 1 cut(s) 178
BstF5I GGATG 5 cut(s) 439, 517, 669, 1091, 1132
BstFNI CGCG 1 cut(s) 30
BstKTI GATC 5 cut(s) 193, 439, 724, 889, 1111
BstMBI GATC 5 cut(s) 190, 436, 721, 886, 1108
BstMCI CGRYCG 1 cut(s) 28
BstMWI GCNNNNNNNGC 6 cut(s) 362, 521, 791, 803, 899, 1112
BstNI CCWGG 2 cut(s) 50, 395
BstSCI CCNGG 2 cut(s) 48, 393
BstSFI CTRYAG 3 cut(s) 345, 711, 819
BstSLI GKGCMC 1 cut(s) 934
BstUI CGCG 1 cut(s) 30
BstV1I GCAGC 3 cut(s) 232, 781, 805
BstV2I GAAGAC 1 cut(s) 227
BsuI GTATCC 1 cut(s) 640
BsuRI GGCC 3 cut(s) 121, 422, 575
BtrI CACGTC 1 cut(s) 464
BtsCI GGATG 5 cut(s) 439, 517, 669, 1091, 1132
BtsI GCAGTG 1 cut(s) 932
BtsIMutI CAGTG 2 cut(s) 932, 934
BtuMI TCGCGA 1 cut(s) 30
BveI ACCTGC 1 cut(s) 1191
Cac8I GCNNGC 4 cut(s) 20, 756, 783, 804
CaiI CAGNNNCTG 1 cut(s) 245
CseI GACGC 1 cut(s) 747
Csp6I GTAC 5 cut(s) 414, 690, 773, 1188, 1195
CviAII CATG 1 cut(s) 1081
CviQI GTAC 5 cut(s) 414, 690, 773, 1188, 1195
DdeI CTNAG 4 cut(s) 527, 570, 729, 1116
DpnI GATC 5 cut(s) 192, 438, 723, 888, 1110
DpnII GATC 5 cut(s) 190, 436, 721, 886, 1108
DraIII CACNNNGTG 1 cut(s) 464
DrdI GACNNNNNNGTC 1 cut(s) 1076
DseDI GACNNNNNNGTC 1 cut(s) 1076
Eam1104I CTCTTC 1 cut(s) 900
EarI CTCTTC 1 cut(s) 900
Eco130I CCWWGG 2 cut(s) 807, 1061
Eco147I AGGCCT 1 cut(s) 422
Eco24I GRGCYC 1 cut(s) 13
Eco32I GATATC 1 cut(s) 982
Eco57I CTGAAG 4 cut(s) 246, 587, 828, 881
Eco88I CYCGRG 2 cut(s) 178, 789
EcoNI CCTNNNNNAGG 1 cut(s) 178
EcoRI GAATTC 1 cut(s) 597
EcoRII CCWGG 2 cut(s) 48, 393
EcoRV GATATC 1 cut(s) 982
EcoT14I CCWWGG 2 cut(s) 807, 1061
EcoT38I GRGCYC 1 cut(s) 13
ErhI CCWWGG 2 cut(s) 807, 1061
FaeI CATG 1 cut(s) 1084
FalI AAGNNNNNCTT 2 cut(s) 219, 251
FatI CATG 1 cut(s) 1080
Fnu4HI GCNGC 4 cut(s) 246, 795, 819, 938
FokI GGATG 5 cut(s) 446, 524, 656, 1078, 1139
FriOI GRGCYC 1 cut(s) 13
Fsp4HI GCNGC 4 cut(s) 246, 795, 819, 938
FspBI CTAG 7 cut(s) 6, 168, 474, 684, 815, 974, 1062
GluI GCNGC 4 cut(s) 246, 795, 819, 938
GsuI CTGGAG 1 cut(s) 903
HaeIII GGCC 3 cut(s) 121, 422, 575
HgaI GACGC 1 cut(s) 747
Hin1II CATG 1 cut(s) 1084
HincII GTYRAC 1 cut(s) 1033
HindII GTYRAC 1 cut(s) 1033
HinfI GANTC 3 cut(s) 390, 500, 876
Hpy166II GTNNAC 3 cut(s) 932, 967, 1033
Hpy188I TCNGA 6 cut(s) 147, 226, 253, 528, 606, 616
Hpy188III TCNNGA 9 cut(s) 29, 41, 153, 239, 318, 459, 556, 789, 882
Hpy8I GTNNAC 3 cut(s) 932, 967, 1033
Hpy99I CGWCG 2 cut(s) 465, 763
HpyAV CCTTC 2 cut(s) 757, 907
HpyCH4III ACNGT 3 cut(s) 26, 413, 964
HpyCH4IV ACGT 1 cut(s) 463
HpyCH4V TGCA 6 cut(s) 70, 356, 515, 713, 821, 932
HpyF10VI GCNNNNNNNGC 6 cut(s) 362, 521, 791, 803, 899, 1112
HpyF3I CTNAG 4 cut(s) 527, 570, 729, 1116
HpySE526I ACGT 1 cut(s) 463
Hsp92II CATG 1 cut(s) 1084
Kzo9I GATC 5 cut(s) 190, 436, 721, 886, 1108
LguI GCTCTTC 1 cut(s) 900
LmnI GCTCC 4 cut(s) 16, 79, 535, 778
Lsp1109I GCAGC 3 cut(s) 232, 781, 805
LweI GCATC 3 cut(s) 232, 502, 678
MaeI CTAG 7 cut(s) 6, 168, 474, 684, 815, 974, 1062
MaeII ACGT 1 cut(s) 463
MaeIII GTNAC 2 cut(s) 62, 994
MalI GATC 5 cut(s) 192, 438, 723, 888, 1110
MboI GATC 5 cut(s) 190, 436, 721, 886, 1108
MboII GAAGA 5 cut(s) 227, 239, 298, 593, 887
MhlI GDGCHC 3 cut(s) 13, 895, 934
MluCI AATT 8 cut(s) 141, 184, 427, 597, 609, 735, 854, 905
MlyI GAGTC 1 cut(s) 870
MmeI TCCRAC 3 cut(s) 362, 513, 624
MnlI CCTC 8 cut(s) 111, 174, 412, 502, 522, 565, 853, 866
MroXI GAANNNNTTC 1 cut(s) 169
MseI TTAA 6 cut(s) 279, 294, 495, 738, 1049, 1203
MspCI CTTAAG 1 cut(s) 1202
MspR9I CCNGG 2 cut(s) 50, 395
MvaI CCWGG 2 cut(s) 50, 395
MvnI CGCG 1 cut(s) 30
MwoI GCNNNNNNNGC 6 cut(s) 362, 521, 791, 803, 899, 1112
NdeII GATC 5 cut(s) 190, 436, 721, 886, 1108
NlaIII CATG 1 cut(s) 1084
NlaIV GGNNCC 3 cut(s) 12, 537, 1059
NmeAIII GCCGAG 1 cut(s) 427
NmuCI GTSAC 2 cut(s) 62, 994
NruI TCGCGA 1 cut(s) 30
PaeR7I CTCGAG 2 cut(s) 178, 789
PceI AGGCCT 1 cut(s) 422
PciSI GCTCTTC 1 cut(s) 900
PdmI GAANNNNTTC 1 cut(s) 169
PfeI GAWTC 2 cut(s) 390, 500
PflMI CCANNNNNTGG 1 cut(s) 40
PfoI TCCNGGA 1 cut(s) 393
PkrI GCNGC 4 cut(s) 247, 796, 820, 939
PleI GAGTC 1 cut(s) 870
PpsI GAGTC 1 cut(s) 870
Psp6I CCWGG 2 cut(s) 48, 393
PspGI CCWGG 2 cut(s) 48, 393
PspN4I GGNNCC 3 cut(s) 12, 537, 1059
PspXI VCTCGAGB 1 cut(s) 178
PsrI GAACNNNNNNTAC 2 cut(s) 205, 237
PstI CTGCAG 2 cut(s) 715, 823
PstNI CAGNNNCTG 1 cut(s) 245
RruI TCGCGA 1 cut(s) 30
RsaI GTAC 5 cut(s) 415, 691, 774, 1189, 1196
RsaNI GTAC 5 cut(s) 414, 690, 773, 1188, 1195
SapI GCTCTTC 1 cut(s) 900
SaqAI TTAA 6 cut(s) 279, 294, 495, 738, 1049, 1203
SatI GCNGC 4 cut(s) 246, 795, 819, 938
Sau3AI GATC 5 cut(s) 190, 436, 721, 886, 1108
ScaI AGTACT 2 cut(s) 691, 1196
SchI GAGTC 1 cut(s) 870
ScrFI CCNGG 2 cut(s) 50, 395
SduI GDGCHC 3 cut(s) 13, 895, 934
SfaNI GCATC 3 cut(s) 232, 502, 678
SfcI CTRYAG 3 cut(s) 345, 711, 819
Sfr274I CTCGAG 2 cut(s) 178, 789
SlaI CTCGAG 2 cut(s) 178, 789
SmlI CTYRAG 4 cut(s) 89, 178, 789, 1202
SmoI CTYRAG 4 cut(s) 89, 178, 789, 1202
SpeI ACTAGT 2 cut(s) 167, 973
Sse9I AATT 8 cut(s) 141, 184, 427, 597, 609, 735, 854, 905
SseBI AGGCCT 1 cut(s) 422
SsiI CCGC 2 cut(s) 938, 1028
SspMI CTAG 7 cut(s) 6, 168, 474, 684, 815, 974, 1062
StuI AGGCCT 1 cut(s) 422
StyD4I CCNGG 2 cut(s) 48, 393
StyI CCWWGG 2 cut(s) 807, 1061
TaaI ACNGT 3 cut(s) 26, 413, 964
TaiI ACGT 1 cut(s) 466
TaqI TCGA 3 cut(s) 179, 761, 790
TasI AATT 8 cut(s) 141, 184, 427, 597, 609, 735, 854, 905
TatI WGTACW 3 cut(s) 413, 689, 1194
TauI GCSGC 1 cut(s) 940
TfiI GAWTC 2 cut(s) 390, 500
Tru1I TTAA 6 cut(s) 279, 294, 495, 738, 1049, 1203
Tru9I TTAA 6 cut(s) 279, 294, 495, 738, 1049, 1203
TscAI CASTG 2 cut(s) 934, 939
TseFI GTSAC 2 cut(s) 62, 994
TseI GCWGC 3 cut(s) 245, 794, 818
Tsp45I GTSAC 2 cut(s) 62, 994
TspDTI ATGAA 4 cut(s) 603, 1080, 1143, 1158
TspRI CASTG 2 cut(s) 934, 939
Van91I CCANNNNNTGG 1 cut(s) 40
Vha464I CTTAAG 1 cut(s) 1202
VneI GTGCAC 1 cut(s) 930
XagI CCTNNNNNAGG 1 cut(s) 178
XapI RAATTY 5 cut(s) 141, 427, 597, 609, 905
XhoI CTCGAG 2 cut(s) 178, 789
XmaJI CCTAGG 1 cut(s) 1061
XmnI GAANNNNTTC 1 cut(s) 169
XspI CTAG 7 cut(s) 6, 168, 474, 684, 815, 974, 1062
ZrmI AGTACT 2 cut(s) 691, 1196
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.